4. CONCLUSION
In this study, genetic diversity indicators of K. evelyniana within and between popullations
were analysed using SSR markers. They were the highest in Lam Dong (Na = 2.063; Ne = 1.730;
Ap = 0.375; I = 0.558; Ho = 0.459 and He = 0.367) and not significant different between Dak
Lak and Kon Tum populations. The rate of cross-pollination among the three populations was
high (Fis < 0), indicating a very low rate of inbreeding in each population occurred. The number
of private alleles (Ap) were found in all Lam Dong (0.375), Dak Lak (0.188) and Kon Tum
(0.063) populations using SSR markers. The gene flow (Nm) also occurred in the populations of
K. evelyniana with Nm = 5.423. The total level of molecular changes between populations was
relatively low (4.65 %) and high within populations (65.35 %). The genetic similarity coefficient
of K. evelyniana in Tay Nguyen ranged from 76.5 to 99 %. Based on Fis value, gene flow rate
and total level of molecular variance analysis, it can conclude that the genetic diversity of
K. evelynianais in Tay Nguyen is alarming, and conservation and management strategies for this
species are urgently needed.
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Vietnam Journal of Science and Technology 56 (3) (2018) 275-285
DOI: 10.15625/2525-2518/56/3/9820
GENETIC DIVERSITY AMONG NATURAL POPULATIONS OF
Keteleeria evelyniana Mast. IN TAY NGUYEN OF VIET NAM
USING SSR MARKERS
Tran Thi Lieu
*
, Vu Thi Thu Hien, Dinh Thi Phong
Vietnam National Museum of Nature, VAST, 18 Hoang Quoc Viet, Cau Giay, Ha Noi
*
Email: tranthilieu@gmail.com
Received: 16 May 2017; Accepted for publication: 16 March 2018
Abstract. Keteleeria evelyniana Mast. is a big softwood species with high economic values.
Therefore, the number of individuals are rapidly decreasing due to rampant exploitation as well
as its habitat loss and recently, the species is considered vulnerable in Viet Nam. In this study,
we assessed the genetic variation among seventy K. evelyniana samples of three natural
populations in Lam Dong, Dak Lak and Kon Tum using 16 microsatellite markers. The results
showed that thirteen markers were polymorphic. A total 39 DNA fragments were amplified,
among them, thirty – five were polymorphic (accounting for 89.74 %). Among studied
populations, the level of genetic diversity at Lam Dong (Na = 2.063; Ne = 1.730; Ap = 0.375; I =
0.558; Ho = 0.459 and He = 0.367) was the highest. Analysis of molecular variance (ANOVA)
showed that the total level of molecular changes between populations was 34.65 % and between
individuals in the same population was 65.35 %. Private alleles (Ap) and inbreeding values (Fis)
of K. evelyniana species were founded of all three populations in Lam Dong, Dak Lak and Kon
Tum (0.375 and - 0.234; 0.188 and - 0.065; 0.063 and - 0.047, respectively). The gene flow (Nm)
also occurred among the K. evelyniana populations with the average of Nm = 5.423. A
dendrogram (UPGMA) constructed based on the similarity matrix of 70 K. evelyniana samples
divided into two main groups with their genetic similarity coefficient ranged from 76.5 % (Ke26
and Ke44) to 99 % (Ke23 and Ke25). The obtained results indicated the importance of
conserving the genetic resources of K. evelyniana species in Tay Nguyen.
Keywords: Keteleeria evelyniana, population genetic diversity, species conservation, SSR, Tay
Nguyen.
Classification numbers: 1.3.2; 3.1.2.
1. INTRODUCTION
Tay Nguyen is the central highlands of Viet Nam and covers two of six phytogeographic
sub-regions of Viet Nam [1], including the sub-region South Truong Son and South Indochina in
Kon Tum, Gia Lai, Dak Lak, Dak Nong and Lam Dong provinces. According to Nguyen Tien
Hiep et al. [2], among the 34 known coniferous species of Viet Nam, there were 15 species of
high economic and scientific value in Tay Nguyen, including Keteleeria evelyniana of the
Tran Thi Lieu, Vu Thi Thu Hien, Dinh Thi Phong
276
Keteleeria genus in the Pinaceae family. It is an evergreen tree that can grow up to 25 - 30 (or
40) metres high. Its trunk is straight and can expand up to two metres in diameters. The mature
trees have broad crown, grey bark and longitudinally fissured. The species is distributed mainly
at altitudes ranging from 500 to 2000 metres above sea-level, in mixed conifer/broad-leaved
forest, scattering from the North West Viet Nam to Tay Nguyen. In Tay Nguyen, K. evelyniana
is currently found only in Lam Dong (at Suoi Vang, Da Chais and Hiep An regions of Lac
Duong and Duc Trong districts, respectively), Dak Lak (Hoa Son, Krong Bong district) and Kon
Tum (Dak Glei district). Beside Viet Nam, the species can also be found in China and Laos.
However, due to over-exploitation and habitat loss, the species is becoming endangered.
Currently, the number of mature trees in the wild is small, although the species had been
described in the past and was harvested for timber, oil and resin. Based on data collection of
surveys and ranking standards in the IUCN Red List, this species can be considered as
vulnerable - VU A4acd, B1 + 2b (ii , iii, v), C [3]. Therefore, a study on genetic diversity of K.
evelyniana should urgenlly be conducted in order to provide information for an effective
conservation strategy in Tay Nguyen.
Genetic diversity analysis can be done based on morphological, biochemical, and
molecular types of information. However, molecular markers have advantages over other kinds,
where they show genetic differences on a more detailed level without interferences from
environmental factors. Application of molecular markers in genetic diversity studies have been
began from the 1980s and many techniques had developed. Among the molecular markers, SSR
(Simple Sequence Repeats) are most popular because it is a codominant marker with high
polymorphism and specificity. Therefore, it was considered highly effective in the study on
genetic diversity in many species, including several species of conifer in the world as well as
Viet Nam [4-7].
In this study, genetic diversity of natural K. evelyniana populations in Tay Nguyen, Viet
Nam was determined. The obtained results will provide the information for conservation,
management and restoration of biological diversity of this species in Tay Nguyen in particular
and in Viet Nam in general.
2. MATERIALS AND METHODS
2.1. Materials
Table 1. Details of K. evelyniana genotypes and populations used in this study.
Population
code
Collection locality
Sample
number
Sample
code
Latitude (
◦
N) Longitude (
◦
E)
Elevation
(m)
Lam
Dong
Suoi Vang, Lac
Duong, Lam Dong
10 Ke1 – Ke10 11° 59’ 58.8" 108° 21’ 59.3” 1464
Hiep An, Duc
Trong, Lam Dong
12
Ke11 –
Ke22
11° 50’ 14.0” 108° 26’ 35.5” 1390
Da Chais, Lac
Duong, Lam Dong
4
Ke23 –
Ke26
12°12’04.5” 108°40’06.2” 1485
Dak Lak
Hoa Son, Krong
Bong, Dak Lak
21
Ke27 –
Ke47
12° 25’ 05.2" 108° 22’ 17.1” 1116
Kon
Tum
Dak Glei, Dak
Glei, Kon Tum
23
Ke48 –
Ke70
15
0
01’ 17’’ 107o 48’ 04” 1553
Genetic diversity among natural populations of Keteleeria evelyniana Mast. in Tay Nguyen
277
Seventy leaf and bark samples of 70 individuals randomly selected from 219 K. evelyniana
trees in Lam Dong, Dak Lak and Kon Tum were used in this study. The fresh samples were kept
in a Ziplock bag including silica gel, and then stored at room temperature until use. Information
of the samples was showed in Table 1 and Figure 1.
Figure 1. Map showing the studying sites of K. evelyniana.
The primers in this study were synthesized by the IDT, (Intergrated DNA Technology,
USA). The nucleotide sequences of these primers referred from previously studies are listed in
Table 2.
2.2. Methods
DNA extraction: Total DNA was extracted and purified using the method described by
Porebski et al. [8]. The concentration of DNA was determined by a UV-visible light
spectrophotometer (UVS 2700, Labomed, USA), and the DNA samples were diluted to 20
ng/µL and used as templates for PCR amplification.
PCR_SSR reaction: PCR reactions were performed on the PCR system 9700 (USA) with a
total volume of 25 µl. The composition of the reaction and the thermo cycle followed the ones
described in Dinh Thi Phong et al. [7]. The SSR fragments were detected
on 5 % polyacrylamide gel 1X TAE, then were visualized under UV using
BioDocAnalyze (Biometra).
KON
TUM
DAK
LAK
LAM
DONG
Dak Glei
Hoa Son
Da Chais
Suoi Vang
Hiep An
Hoang Sa Islands
Truong Sa Islands
Phu Quy
Island
Tho Chu
Island
Con Dao
Island
Phu Quoc
Island
Tran Thi Lieu, Vu Thi Thu Hien, Dinh Thi Phong
278
Table 2. The nucleotides sequences, PCR production sizes and optimum annealing temperatures
of SSR markers in this study.
No.
Primers
code
Nucleotides Reference
Ta
(
o
C)
Size (bp)
1 FRPP91
5‘ GTACTCCCACATAAAATGAGACTT 3’
3’ CCGAAATACATTGCAGGTTA 5’
[9] 53 100 – 180
2 Cm3
5’ TGGGTTGACCAGTGCTTCT 3’
3’ ATGCCCAACACCTCATTAGA 5’
[4] 53 120 – 200
3 PeB31BGT
5’ GGCATTGGCTCAACAGA 3’
3’ TCGTGGAGAGGTACTTCATT 5’
[10] 54 190 – 500
4 Pinus10
5’ CGGGCTGGTATCTCAAGAGT 3’
3’ ACACACACACACAGAGAGAGAG 5’
[5] 55 285 – 305
5 PRE10
5’ CTGGTCTTGGCCTAAGAATATGAAG 3’
3’ CATTGGGACGTAAACAACAATACCA 5’
[11] 52 120 – 210
6 PRE13
5’GATGTGTCTTTAGGCTCGTTGC 3’
3’ AGGGTTAGTAATCACGGCCTGT 5’
[11] 54 170 – 180
7 PRE16
5’ TCCTGCGATGAGTCTCTTTGT 3’
3’ TCCATTTTTTACTTTTGATAACTTTAC 5’
[11] 52 195 – 490
8 PRE24
5’ GTTTTTTAAATTGGGAAGGCG 3’
3’ CGTGGGGGAGATAGTGATAGAGT 5’
[11] 54 380 – 400
9 P1
5’ CTCCCTCTATGTGTTTCTCC 3’
3’ GAAAATCTTTCTACCCTTCCAG 5'
[12] 55 300 - 400
10 P5
5’ GTTCGCTAGTTTGTTTGATCCC 3’
3’ TCCCAGCAAATCCTTGACTC 5’
[12] 53 145 – 160
11 Pt36480
5’TTTTGGCTTACAAAATAAAAGAGG 3’
3’ AAATTCCTAAAGAAGGAAGAGCA 5’
[13] 52 160 – 160
12 Pt87268
5’ GCCAGGGAAAATCGTAGG 3’
3’ AGAAGATTAGACATCCAACCC 5’
[14] 56 160 – 160
13 PtTX3026
5’ AATACTTGGGAGGGATAC 3’
3’AATAGCCAGTTTTGTTTG 5’
[15] 53 130 – 255
14 PtTX3034
5’ TCAAAATGCAAAAGACG 3’
3’ ATTAGGACTGGGGATGAT 5’
[15] 53 200 – 210
15 RPS1b
5’ GCCCACTATTCAAGATGTCA 3’
3’ GATGTTAGCAGAAACATGAGG 5’
[16] 54 100 – 100
16 RPS2
5’ CATGGTGTTGGTCATTGTTCCA 3’
3’ TGGAGGCTATCACGTATGCACC 5’
[16] 54 185 – 210
Data analysis: The parameters including genetic diversity of each population as the average
of number of observed alleles (Na), effective alleles (Ne) and private alleles (Ap) per locus,
percentage of polymorphic bands (PPB), the Shannon’s genetic diversity index (I) [17], the
expected (He) and observed heterozygosity (Ho = number of heterozygous individuals/ total
individuals), and the Wright’s inbreeding coefficient (Fis) were analyzed and obtained using the
GENALEX 6.3 [18] and FSTAT software [19]. The genetic differences coefficient (Fst) and
gene flow (Nm) for each locus were calculated using the formula: Fst = (Ht - Mean He)/ Ht and
Nm = [(1/Fst)-1]/ 4, in where He = 1 - ∑(pi), Ht (total expected heterozygosity) = 1 - ∑(tpi)2, (pi
is the frequency of the i
th
allele, tpi is the frequency of the i
th
allele for the total). Exact tests of
Genetic diversity among natural populations of Keteleeria evelyniana Mast. in Tay Nguyen
279
deviation from the Hardy-Weinberg equilibrium for all loci and among populations were
performed at the significance level (P) of 0.001. Analysis of molecular variance (ANOVA) was
also conducted to calculate level of significant variation among and within populations using the
GENALEX 6.3 program. We also constructed a dendrogram base on similarity matrix of 70 K.
evelyniana samples using the method of Nei and Li [20] in NTSYS software version 2.0. The
bootstrap value was repeated 1000 times and supported by Win-Boot software [21].
3. RESULTS
3.1. Genetic diversity
The sixteen SSR primer pairs were used to assess the genetic diversity for 70 K. evelyniana
individuals of three populations in Lam Dong, Dak Lak and Kon Tum. There were 13/16 primer
pairs showing polymorphism with an average of polymorphism information content (PIC) and
the intra locus gene diversity (Hj) of 0.182 and 0.210, respectively. A total of 39 DNA fragments
were amplified with their sizes ranging from 100 bp to 500 bp, of which 35 fragments were
polymorphic (accounting for 89.74 %), an average of 2.44 fragments per marker (Table 3).
Figure 2 showed the representative results of PCR products from the 70 samples using the
Pinus10 marker.
Figure 2. The PCR-SSR products of the 70 specimens using Pinus10 on 6 % polyacrylamide gels
(numbers 1 –70: the samples from Ke1 to Ke70, M: marker 100 bp).
The analyzed parameters such as the average of number of alleles observed (Na), effective
alleles (Ne) and private alleles (Ap) per locus, the Shannon’s genetic diversity index (I), the
expected (He) and observed heterozygosity (Ho) of each population were showed in Table 4.
The results showed that genetic diversity in Lam Dong population (2.063; 1.730; 0.375; 0.558;
0.459 and 0.367, respectively) was the highest and there was in significant difference between
Dak Lak and Kon Tum populations. The number of effective alleles per locus, observed and
expected heterozygosity in Kon Tum population (Ne = 1.651; Ho = 0.370 and He = 0.346) were
higher than those of Dak Lak (Ne = 1.637; Ho = 0.363 and He = 0.333), while the average
number of observed alleles and private alleles per locus, Shannon’s genetic diversity index in
Dak Lak population (Na = 1.875, Ap = 0.188 and I = 0.495) were higher than those of Kon Tum
(Na = 1.750; Ap = 0.063 and I = 0.489, respectively) (Table 4). At the population level, the mean
of Shannon’s genetic diversity index of K. evelyniana population was 0.514. This genetic
diversity level was higher than that of P. krempfii population (I = 0.377) [6], but lower than that
of P. dalatensis population in Tay Nguyen (I = 0.524) [7].
M 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 3 9 40 41 42 43 44 45 46 47 4849 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70
200 bp
300 bp
400 bp
Tran Thi Lieu, Vu Thi Thu Hien, Dinh Thi Phong
280
Table 3. Value PIC, intralocus genetic diversity and the percentage of polymorphic bands of SSR markers.
No. Primers Size (bp) PIC
Polymorphic
bands
Monomorphic
bands
Total
bands
Percentage of
polymorphic
bands
Intralocus
genetic diversity
(Hj)
1 FRPP91 100-180 0.113 1 1 2 50 0.240
2 Cm3 120-200 0.482 4 0 4 100 0.359
3 PeB31BGT 190-500 0.174 3 0 3 100 0.118
4 Pinus10 285-305 0.146 2 0 2 100 0.250
5 PRE10 120-210 0.418 5 0 5 100 0.226
6 PRE13 170-180 0.145 2 0 2 100 0.359
7 PRE16 195-490 0.386 4 0 4 100 0.455
8 PRE24 380-400 0.014 2 0 2 100 0.054
9 P1 300- 400 0.237 3 0 3 100 0.234
10 P5 145- 160 0.246 2 0 2 100 0.191
11 Pt36480 160-160 0.000 0 1 1 0 0.000
12 Pt87268 160-160 0.000 0 1 1 0 0.000
13 PtTX3026 130-255 0.118 2 0 2 100 0.345
14 PtTX3034 200- 210 0.146 2 0 2 100 0.250
15 RPS1b 100- 100 0.000 0 1 1 0 0.000
16 RPS2 185- 210 0.277 3 0 3 100 0.278
Sum 100-500 2.902 35 4 39 - 3.359
Mean 0.182 2.188 0.250 2.438 89.74 0.210
Table 4. Genetic diversity of three K. evelyniana populations at 16 SSR markers.
Populations Na Ne I Ho He Ap Fis PPB (%)
Lam Dong 2.063 1.730 0.558 0.459 0.367 0.375 - 0.234 81.25
Dak Lak 1.875 1.637 0.495 0.363 0.333 0.188 - 0.065 81.25
Kon Tum 1.750 1.651 0.489 0.370 0.346 0.063 - 0.047 75.00
Mean 1.896 1.673 0.514 0.397 0.349 0.208 - 0.115 79.17
At the species level 2.438 2.027 0.677 0.401 0.418 - - 81.25
Notes: Na: the average number of alleles per locus; Ne: number of effective alleles per locus; I: Shannon’s
genetic diversity index; Ho and He: the observed and expected heterozygosity; Ap: number of private
alleles per locus; Fis: Wright’s inbreeding coefficient with p < 0.05; PPB%: percentage of polymorphic
bands.
The results in Table 4 also showed that among the private alleles (Ap) found in all 3
populations, the highest number was in Lam Dong population (0.375) and the lowest was in Kon
Tum population (0.063). The fixation index values of all studied populations were negative (Fis
< 0) with ranging from - 0.047 of Kon Tum population to - 0.234 of Lam Dong population. The
observed heterozygosity of K. evelyniana populations were higher than the expected
heterozygosity (Ho > He). This result indicated that the excess heterozygosity of K. evelyniana
species in Tay Nguyen could be attributed to the phenomenon of cross-pollinating between
populations.
At the species level, genetic diversity of K. evelyniana was expressed by their effective
allele number per locus Ne = 2.027, Shannon’s genetic diversity index I = 0.677 and expected
heterozygosity He = 0.418 (Table 4). Comparison to some other conifer species in Tay Nguyen
showed that the expected (He) and observed heterozygosity (Ho) values of K. evelyniana (0.418
Genetic diversity among natural populations of Keteleeria evelyniana Mast. in Tay Nguyen
281
and 0.401) were the higher than those of P. krempfii (0.234 and 0.310) [6]. It’s expected
heterozygosity value found the lower than that of P. dalatensis (He = 0.418 vs 0.524), however
it’s observed heterozygosity value was the higher (Ho = 0.401 vs 0.234) [7].
In order to further evaluate genetic diversity degree of K. evelyniana, genetic parameters
for each SSR marker are also analyzed. The analysis indicated that the average of observed (Ho)
and expected heterozygosity (He) values of K. evelyniana population were 0.423 and 0.324,
respectively (Table 5). Comparison of heterozygosity level of species in the genus Keteleeria
showed that K. evelyniana species in Tay Nguyen (Ho = 0.423, He = 0.324) were lower than
those of K. davidiana var. formosana species in Taiwan (Ho = 0.68, He = 0.82) and (Ho = 0.63,
He = 0.78) in study of Ho et al. [22]. The results in Table 5 also showed that the average of gene
flow (Nm) of K. evelyniana was 5.423. The marker PtTX3026 gave the highest Nm (Nm =
34.882 and Fst = 0.007) and the marker Cm3 was the lowest (Nm = 0.312 and Fst = 0.445).
Compared with P. krempfii species in Tay Nguyen, gene flow level of K. evelyniana species was
the higher (2.315 vs 5.423, respectively) [6].
Table 5. The genetic parameters of all K.evelyniana populations for 16 SSR markers.
Primers Na Ne I Ho He Fis Fst Nm
FRPP91 2.00 1.688 0.564 0.647 0.384 -0.686 0.123 1.776
Cm3 1.80 1.669 0.514 0.134 0.361 0.629 0.445 0.312
PeB31BGT 2.20 1.769 0.625 0.505 0.405 -0.249 0.104 2.153
Pinus10 2.00 1.973 0.686 0.819 0.493 -0.661 0.008 30.856
PRE10 2.20 2.132 0.761 0.519 0.523 0.007 0.235 0.814
PRE13 2.00 1.847 0.647 0.695 0.455 -0.527 0.030 8.096
PRE16 1.80 1.333 0.365 0.214 0.229 -0.433 0.376 0.416
PRE24 2.00 2.000 0.693 1.000 0.500 0.064 0.065 3.620
P1 1.60 1.346 0.318 0.198 0.211 -1.000 0.138 1.563
P5 1.00 1.000 0.000 0.000 0.000 0.062 0.158 1.337
Pt36480 1.00 1.000 0.000 0.000 0.000 - - -
Pt87268 2.00 1.981 0.688 0.763 0.495 - - -
PtTX3026 2.00 1.566 0.499 0.313 0.330 -0.542 0.007 34.882
PtTX3034 2.00 1.872 0.654 0.662 0.462 0.052 0.322 0.526
RPS1b 1.80 1.579 0.486 0.302 0.334 - - -
RPS2 1.00 1.000 0.000 0.000 0.000 0.095 0.377 0.412
Mean 1.775 1.610 0.469 0.423 0.324 -0.245 0.184 5.423
Notes: Na: average of number of alleles per locus; Ne: number of effective alleles per locus; I: Shannon
diversity index; Ho and He: the observed and expected heterozygosity; Fis: Wright’s inbreeding
coefficient with p < 0.05; Fst: coefficient of genetic differences; Nm: gene flow.
3.2. Population structure
Molecular variance (ANOVA) analysis among K. evelyniana populations using SSR
markers indicated that 65.35 % of the total genetic diversity was distributed within groups and
only 34.65 % was attributed to differences between regions (with p value < 0.001) (Table 6).
The low variability between populations was also reported by Tam et al., 2013, in which the
genetic variation was found in the populations of Glyptostrobus pensilis of Viet Nam [23].
Tran Thi Lieu, Vu Thi Thu Hien, Dinh Thi Phong
282
Table 6. Analysis of molecular variance among/within K. evelyniana populations.
Source of variance
Degree
of
freedom
Sum of
squares
Variance
components
Total
variation
(% )
p value
Among population 2 65.259 1.298 34.65
< 0.001
Within population 67 164.112 2.449 65.35
Genetic differences between populations of K. evelyniana were calculated based on alleles
frequency comparison of markers between pairwise populations and showed in Table 7. The
average genetic difference level between studied populations was low with Fst = 0.118. The
lowest one (Fst = 0.092) was between Lam Dong and Dak Lak population and the highest (Fst =
0.137) was between Dak Lak and Kon Tum populations (Table 7). When comparison with some
other coniferous species, this value of K. evelyniana in Tay Nguyen (Fst = 0.118) was found to
be lower than P. dalatensis (Fst = 0.287) [7], P. resinosa (Fst = 0.280) and P. radiata (Fst =
0.14) [10, 24], and higher than P. cembra (Fst = 0.02) [25].
Table 7. Value of genetic differences between pairwise of populations K. evelyniana.
Lam Dong Dak Lak Kon Tum
Lam Dong
Dak Lak 0.092
Kon Tum 0.105 0.137
The low in both molecular variance (34.65 %) and genetic difference (Fst = 0.118) between
the populations of K. evelyniana in Tay Nguyen indicated the studied species is relatively
conservative in its genome and only slight variation can be occurred depending on geographical
features.
3.3. Genetic relationships among 70 K. evelyniana samples
A UPGMA dendrogram constructed based on similarity matrix with SSR markers (Figure
3) divided 70 K. evelyniana samples into two main groups (I and II) with their genetic similarity
coefficient ranged from 76.5 % (Ke26 and Ke44) to 99 % (Ke23 and Ke25). Each main group
also divided into two subgroups. Subgroup I.1 included 23 samples collected in Kon Tum (Ke48
– Ke70) with their genetic similarity coefficient ranged from 84 % to 98.6 %. The second
subgroup I.2 included 21 samples originated from Dak Lak (Ke27 – Ke47) with their genetic
similarity coefficient ranged from 81.4 % to 98.3 %. The subgroup II.1 and II.2 included 12
samples of Hiep An (Lam Dong) (Ke11 – Ke22) and 14 samples of Suoi Vang and Da Chais
(Lam Dong), respectivelly. The obtained results obviously showed that the samples in the same
geographic regions were clustered into the some subgroups. The genetic similarities between
samples in the dendrogram (from 76.5 % to 99 %) were also consistent with population structure
analysis above (genetic variation among populations 34.65 % and genetic difference Fst =
0.118).
Genetic diversity among natural populations of Keteleeria evelyniana Mast. in Tay Nguyen
283
Figure 3. UPGMA dendrogram based on similarity genetic coefficient of 70 K. evelyniana samples
analysis SSR markers with the bootstrap values repeat 1000 times (Note: a: samples in Kon Tum; b:
samples in Dak Lak; c: samples in Hiep An (Lam Dong); d: samples in Da Chais and Suoi Vang (Lam Dong).
4. CONCLUSION
In this study, genetic diversity indicators of K. evelyniana within and between popullations
were analysed using SSR markers. They were the highest in Lam Dong (Na = 2.063; Ne = 1.730;
Ap = 0.375; I = 0.558; Ho = 0.459 and He = 0.367) and not significant different between Dak
Lak and Kon Tum populations. The rate of cross-pollination among the three populations was
high (Fis < 0), indicating a very low rate of inbreeding in each population occurred. The number
of private alleles (Ap) were found in all Lam Dong (0.375), Dak Lak (0.188) and Kon Tum
(0.063) populations using SSR markers. The gene flow (Nm) also occurred in the populations of
K. evelyniana with Nm = 5.423. The total level of molecular changes between populations was
relatively low (4.65 %) and high within populations (65.35 %). The genetic similarity coefficient
of K. evelyniana in Tay Nguyen ranged from 76.5 to 99 %. Based on Fis value, gene flow rate
and total level of molecular variance analysis, it can conclude that the genetic diversity of
K. evelynianais in Tay Nguyen is alarming, and conservation and management strategies for this
species are urgently needed.
Acknowledgements: This research was financially supported by the Tay Nguyen 3 Program for the Project
number TN3/T15. The authors gratefully acknowledge the assistance of Ngoc Linh Nature Reserve (Kon
0.76 1.00
I
II
II.1
II.2
I.1
b
a
I.2
c
d
53.9
70.0
57.0
65.3
54.3
58.0
67.6
66.6
78.153.7
Coefficient
Tran Thi Lieu, Vu Thi Thu Hien, Dinh Thi Phong
284
Tum province), Bidoup Nui Ba National Park (Lam Dong province), Chu Yang Sin National Park (Dak
Lak province) and other organizations in Tay Nguyen for species survey and sample collections.
REFERENCES
1. Averyanov L. V., Phan Ke Loc, Nguyen Tien Hiep, Harder D. K. - Review of Viet Nam
and adjacent phytogeographic which areas of Eastern Indochina, Komarovia 3 (2003)
1-83.
2. Nguyen Tien Hiep, Phan Ke Loc, Nguyen Duc Luu, Philip Ian Thomas, Aljos Farjon,
Leonid Averyanov, Jacinto Regalado - Viet Nam conifers: conservation status review
2004, Fauna and Flora International, Viet Nam Programme, Ha Noi, 2004.
3. Phan Ke Loc, Pham Van The, Nguyen Sinh Khang, Nguyen Thi Thanh Huong,
Averyanov L. V. – Updated checklist of native conifers of Viet Nam, The 5-th National
conference on Ecology and Biological resources (2013) 135-143 (in Vietnamese).
4. Liao S. X., Mi X. J., Liu A. Z., Li K., Yang Z. Y., Tian B. - Isolation and characterization
of polymorphic microsatellite markers in Calocedrus macrolepis Kurz (Cupressaceae),
Hort Science 45 (1) (2010) 169-171.
5. Hung K. H., Lin C. Y., Huang C. C., Hwang C. C., Hsu T. W., Ku Y. L., Wang W. K.,
Hung C. Y., Chiang T. Y. - Isolation and characterization of microsatellite loci from Pinus
massoniana (Pinaceae), Botanical Studies 53 (2012) 191-196.
6. Dinh Thi Phong, Vu Thi Thu Hien, Tran Thi Lieu, Nguyen Tien Hiep - Assessment of the
genetic diversity of natural populations of flat leaf conifers (Pinus krempfii Lecomte) in
Tay Nguyen, Viet Nam by SSR directive, Journal of Biology 36 (2) (2014) 210-219 (in
Vietnamese).
7. Dinh Thi Phong, Vu Thi Thu Hien, Tran Thi Lieu, Nguyen Tien Hiep - Genetic diversity
in the natural population of Pinus dalatensis Ferré (Pinaceae) assessed by SSR markers,
Journal of Science and Technology 54 (2) (2016) 178-189.
8. Porebski S., Bailey L. G., Baum B. R. - Modification of a DNA extraction protocol for
CTAB plants containing high polysaccharide and polyphenol components. Plant
Molecular Biology Reporter 15 (1) (1997) 8-15.
9. Mariettea S., Chagnea D., Decroocqa S., Vendramin G. G., Lalannea C., Madura D.,
Plomiona C. - Microsatellite markers for Pinus pinaster Ait, Annals of Forest Science 58
(2001) 203-206.
10. Mellick R., Porter C., Rossetto M. - Isolation and characterization of polymorphic
microsatellite loci from Podocarpus elatus (Podocarpaceae), Molecular Ecology
Resources 9 (6) (2009)1460-1466.
11. Boys J., Cherry M., Dayanandan S. - Microsatellite analysis reveals genetically distinct
populations on red pine (Pinus resinosa, Pinaceae), American Journal of Botany 92 (5)
(2005) 833-841.
12. Soranzo N. J., Provan, Powell - An example of microsatellite variation in the
mitochondrial genome length of conifers, Genome 42 (1999) 158-161.
13. Clark C. M., Wentworth T. R., Woolliam J. A. - Genetic discontinuity revealed by
chloroplast microsatellites in north eastern American Abies (Pinaceae), American Journal
of Botany 87 (6) (2000) 774-782.
Genetic diversity among natural populations of Keteleeria evelyniana Mast. in Tay Nguyen
285
14. Vendramin G. G., Lelli L., Rossi P., Morgante M. - A set of primers for the amplification
of 20 microsatellites in Pinaceae chloroplast, Molecular Ecology 5 (1996) 595-598.
15. Elsik C. G,, Minihan V. T., Hall S. E., Scarpa A. M., Williams C. G. - Low-copy
microsatellite markers for Pinus taeda L., Genome 43 (2000) 550-555.
16. Echt C. S., May-Marquardt P., Hseih M., Zahorchak R. - Characterization of
microsatellite markers in eastern white pine, Genome 39 (1996) 1102-1108.
17. Shannon C., Weaver W. - The mathematical theory of communication, University of
Illinois Press, Urbana, USA, 1949.
18. Peakall R., Smouse P. E. - GENALEX 6: Genetic analysis in excel, Population genetic
software for teaching and research, Molecular Ecology Notes 6 (2006) 288-295
19. Goudet J. - FSTAT version 1.2: a computer program to calculate F-statistics, Journal of
Heredity 86 (1995) 485-486.
20. Rohlf F. J. - NTSYS-PC: Numerical taxonomy and multivariate analysis system version
2.0, State University of New York (Stony Brook, New York), 1992.
21. Yap I. V., Nelson R. J. - Winboot: a program for performing bootstrap analysis of binary
data to determine the confidence of UPGMA-based dendrograms, IRRI, Manila, 1996.
22. Ho C. S., Shih H. C., Liu H. Y., Chiu S. T., Chen M. H., Ju L. P., Ko Y. Z., Shih Y. S.,
Chen C. T., Hsu T. W., Chiang Y. C. – Development and characterization of 16
polymorphic microsatellite markers from Taiwan cow-tail fir, Keteleeria davidiana var.
formosana (Pinaceae) and cross-species amplification in other Keteleeria taxa, BioMed
Central Research Notes 7 (2014) 255.
23. Tam N. M., Duy V. D., Xuan B. T. T., Duc N. M. - Genetic variation and population
structure in Chinese water pine (Glyptostrobus pensilis): a threatened species, Indian
Journal of Biotechnology 12 (2013) 499-503.
24. Karhu A., Vogl C., Moran G. F., Bell C. J., Savolainen O. S. - Analysis of microsatellite
variation in Pinus radiata effects of genetic drift reveals recent but no bottlenecks, Journal
of Evolutionary Biology 19 (2006) 167-175.
25. Höhn M., Ábrán P., Vendramin G. G. - Genetic analysis of Swiss stone pine populations
(Pinus cembra L. subsp. cembra) from the Carpathians using chloroplast microsatellites,
Acta et Ligniensia Hungarian Silvatica 1 (2005) 39-47.
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